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Cancer of prostate (PheCode 185)

LMTK2 · rs3801294

Where this position leads

Condition: Prostate Cancer

rs3801294 Condition: Prostate Cancer Prostate Cancer Condition rs3801294 rs3801294 LMTK2

What the study found

Who was studied 15,097 African American or Afro-Caribbean cases, 88,327 African American or Afro-Caribbean controls, 3,485 Hispanic or Latin American cases, 49,682 Hispanic or Latin American controls, 306 East Asian ancestry cases, 5,753 East Asian ancestry controls, 42,997 European ancestry cases, 368,045 European ancestry controls.

The effect Each copy of the G allele shifted the measure 0.0919 higher (95% confidence interval 0.076-0.108); p = 1 × 10−35.

How common The G allele had a frequency of about 56% in the people studied.

Where it sits Chromosome 7, band 7q21.3 — a synonymous change in LMTK2.

What each result means

A/A No copy of the version the research linked to Cancer of prostate (PheCode 185). This is the starting point the study compared everyone against.
A/G One copy of the version the research linked to Cancer of prostate (PheCode 185). That is a smaller link than two copies.
G/G Two copies of the version the research linked to Cancer of prostate (PheCode 185). That is the strongest link of the three results. A link in a study is not a diagnosis.
Source
Diversity and scale: Genetic architecture of 2068 traits in the VA Million Veteran Program
Verma A, Huffman JE, Rodriguez A, Conery M, Liu M, Ho YL, Kim Y, Heise DA, Guare L, Panickan VA, Garcon H, Linares F
and 59 more — show all
Costa L, Goethert I, Tipton R, Honerlaw J, Davies L, Whitbourne S, Cohen J, Posner DC, Sangar R, Murray M, Wang X, Dochtermann DR, Devineni P, Shi Y, Nandi TN, Assimes TL, Brunette CA, Carroll RJ, Clifford R, Duvall S, Gelernter J, Hung A, Iyengar SK, Joseph J, Kember R, Kranzler H, Kripke CM, Levey D, Luoh SW, Merritt VC, Overstreet C, Deak JD, Grant SFA, Polimanti R, Roussos P, Shakt G, Sun YV, Tsao N, Venkatesh S, Voloudakis G, Justice A, Begoli E, Ramoni R, Tourassi G, Pyarajan S, Tsao P, O'Donnell CJ, Muralidhar S, Moser J, Casas JP, Bick AG, Zhou W, Cai T, Voight BF, Cho K, Gaziano JM, Madduri RK, Damrauer S, Liao KP
Science (New York, N.Y.) · 2024 · PMID 39024449 · open access

Questions about rs3801294

What is rs3801294?

rs3801294 is a single position in the genome, in or near the LMTK2 gene. Published research associates it with cancer of prostate (phecode 185). A single variant does not decide an outcome — it shifts a probability, and for most common variants the shift is small.

What conditions is rs3801294 linked to?

On MyGeneLog this position is linked to Prostate Cancer. The research behind each link, and its sources, are set out on that condition page.

Does having rs3801294 mean I will get this?

No. Common variants like this one move a probability slightly and, on their own, rarely decide anything about one person. Nothing on this page is a diagnosis, and health decisions should be made with a clinician who can see your whole picture.

Where does the information about rs3801294 come from?

GWAS Catalog, Science (New York, N.Y.) 2024, PMID:39024449. Every variant on MyGeneLog comes from public primary sources and is published with its citation and the date it was checked.

Quoting this page

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Cancer of prostate (PheCode 185) (rs3801294). MyGeneLog™. https://www.mygenelog.com/variants/rs3801294

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